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Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy

Cryogenic electron microscopy (Cryo-EM) has been established as one of the key players in structural biology. It can reconstruct a 3D model of a sample at a near-atomic resolution. With the increasing number of facilities, faster microscopes, and new imaging techniques, there is a growing demand for...

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Autores principales: Střelák, David, Marchán, Daniel, Carazo, José María, S. Sorzano, Carlos O.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10609077/
https://www.ncbi.nlm.nih.gov/pubmed/37893272
http://dx.doi.org/10.3390/mi14101835
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author Střelák, David
Marchán, Daniel
Carazo, José María
S. Sorzano, Carlos O.
author_facet Střelák, David
Marchán, Daniel
Carazo, José María
S. Sorzano, Carlos O.
author_sort Střelák, David
collection PubMed
description Cryogenic electron microscopy (Cryo-EM) has been established as one of the key players in structural biology. It can reconstruct a 3D model of a sample at a near-atomic resolution. With the increasing number of facilities, faster microscopes, and new imaging techniques, there is a growing demand for algorithms and programs able to process the so-called movie data produced by the microscopes in real time while preserving a high resolution and maximal information. In this article, we conduct a comparative analysis of the quality and performance of the most commonly used software for movie alignment. More precisely, we compare the most recent versions of FlexAlign (Xmipp v3.23.03), MotionCor2 (v1.6.4), Relion MotionCor (v4.0-beta), Warp (v1.0.9), and CryoSPARC (v4.0.3). We tested the quality of the alignment using generated phantom data, as well as real datasets, comparing the alignment precision, power spectra density, and performance scaling of each program.
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spelling pubmed-106090772023-10-28 Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy Střelák, David Marchán, Daniel Carazo, José María S. Sorzano, Carlos O. Micromachines (Basel) Article Cryogenic electron microscopy (Cryo-EM) has been established as one of the key players in structural biology. It can reconstruct a 3D model of a sample at a near-atomic resolution. With the increasing number of facilities, faster microscopes, and new imaging techniques, there is a growing demand for algorithms and programs able to process the so-called movie data produced by the microscopes in real time while preserving a high resolution and maximal information. In this article, we conduct a comparative analysis of the quality and performance of the most commonly used software for movie alignment. More precisely, we compare the most recent versions of FlexAlign (Xmipp v3.23.03), MotionCor2 (v1.6.4), Relion MotionCor (v4.0-beta), Warp (v1.0.9), and CryoSPARC (v4.0.3). We tested the quality of the alignment using generated phantom data, as well as real datasets, comparing the alignment precision, power spectra density, and performance scaling of each program. MDPI 2023-09-26 /pmc/articles/PMC10609077/ /pubmed/37893272 http://dx.doi.org/10.3390/mi14101835 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Střelák, David
Marchán, Daniel
Carazo, José María
S. Sorzano, Carlos O.
Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy
title Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy
title_full Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy
title_fullStr Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy
title_full_unstemmed Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy
title_short Performance and Quality Comparison of Movie Alignment Software for Cryogenic Electron Microscopy
title_sort performance and quality comparison of movie alignment software for cryogenic electron microscopy
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10609077/
https://www.ncbi.nlm.nih.gov/pubmed/37893272
http://dx.doi.org/10.3390/mi14101835
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